Results 21 to 30 of about 131,982 (283)

Illumina DNA Prep (M) Tagmentation Library Preparation for use on an Illumina MiSeq Sequencer v1 [PDF]

, 2020
This procedure outlines the protocol for whole genome sequencing of bacterial organisms using the Illumina DNA Prep library preparation kit for sequencing on an Illumina MiSeq sequencer. This document applies to all laboratory personnel in the Division of Microbiology (DM) as well as laboratories in the GenomeTrakr Network.
Julie Haendiges, Narjol Gonzalez-Escalona, Ruth Timme, Maria Balkey   +3 more
openaire   +2 more sources

Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis [PDF]

BMC Microbiology, 2015
Although high-throughput sequencing, such as Illumina-based technologies (e.g. MiSeq), has revolutionized microbial ecology, adaptation of amplicon sequencing for environmental microbial community analysis is challenging due to the problem of low base diversity.A new phasing amplicon sequencing approach (PAS) was developed by shifting sequencing phases
Wu, Liyou, Wen, Chongqing, Qin, Yujia, Yin, Huaqun, Tu, Qichao, Van Nostrand, Joy D., Yuan, Tong, Yuan, Menting, Deng, Ye, Zhou, Jizhong   +9 more
openaire   +2 more sources

A shared mucosal gut microbiota signature in primary sclerosing cholangitis before and after liver transplantation

Hepatology, EarlyView., 2022
In this study of the gut mucosal microbiota in primary sclerosing cholangitis (PSC), we found consistent microbiota features associated with PSC and recurrent PSC, PSC with inflammatory bowel disease and a persistent gut dysbiosis after liver transplantation Abstract Background and Aims Several characteristic features of the fecal microbiota have been ...
Mikal Jacob Hole, Kristin Kaasen Jørgensen, Kristian Holm, Peder R. Braadland, Malin Holm Meyer‐Myklestad, Asle Wilhelm Medhus, Dag Henrik Reikvam, Alexandra Götz, Krzysztof Grzyb, Kirsten Muri Boberg, Tom Hemming Karlsen, Martin Kummen, Johannes R. Hov   +12 more
wiley   +1 more source

High-quality single amplicon sequencing method for illumina MiSeq platform using pool of ‘N’ (0–10) spacer-linked target specific primers without PhiX spike-in

BMC Genomics, 2023
Background Illumina sequencing platform requires base diversity in the initial 11 cycles for efficient cluster identification and colour matrix estimation. This limitation yields low-quality data for amplicon libraries having homogeneous base composition.
Tejali Naik, Mohak Sharda, Lakshminarayanan C P, Kumar Virbhadra, Awadhesh Pandit   +4 more
doaj   +1 more source

Sample Preparation for Illumina MiSeq Dual Index Amplicon Sequencing v1 [PDF]

, 2019
Amplicon sequencing sample preparation for bacteria and microeukaryotes
Máté Vass, Anna Székely
openaire   +2 more sources

QQ-SNV: single nucleotide variant detection at low frequency by comparing the quality quantiles [PDF]

, 2015
Background: Next generation sequencing enables studying heterogeneous populations of viral infections. When the sequencing is done at high coverage depth ("deep sequencing"), low frequency variants can be detected.
Aerssens, Jeroen, Clement, Lieven, Reumers, Joke, Thys, Kim, van der Borght, Koen, van Vlijmen, Herman, Verbist, Bie, Wetzels, Yves   +7 more
core   +4 more sources

Insight into biases and sequencing errors for amplicon sequencing with the Illumina MiSeq platform [PDF]

Nucleic Acids Research, 2015
With read lengths of currently up to 2 × 300 bp, high throughput and low sequencing costs Illumina's MiSeq is becoming one of the most utilized sequencing platforms worldwide. The platform is manageable and affordable even for smaller labs. This enables quick turnaround on a broad range of applications such as targeted gene sequencing, metagenomics ...
Schirmer, Melanie, Ijaz, Umer Z., D'Amore, Rosalinda, Hall, Neil, Sloan, William T., Quince, Christopher   +5 more
openaire   +4 more sources

Whole-Genome Sequencing of Human Enteroviruses from Clinical Samples by Nanopore Direct RNA Sequencing

Viruses, 2020
Enteroviruses are small RNA viruses that affect millions of people each year by causing an important burden of disease with a broad spectrum of symptoms.
Carole Grädel, Miguel A. Terrazos Miani, Christian Baumann, Maria Teresa Barbani, Stefan Neuenschwander, Stephen L. Leib, Franziska Suter-Riniker, Alban Ramette   +7 more
doaj   +1 more source

16S rRNA gene sequencing of mock microbial populations- impact of DNA extraction method, primer choice and sequencing platform [PDF]

, 2016
peer-reviewedBackground Next-generation sequencing platforms have revolutionised our ability to investigate the microbiota composition of complex environments, frequently through 16S rRNA gene sequencing of the bacterial component of the
Claesson, Marcus J., Clooney, Adam G, Cotter, Paul D., Fouhy, Fiona, STANTON, CATHERINE   +4 more
core   +2 more sources

2b-RAD genotyping for population genomic studies of Chagas disease vectors: Rhodnius ecuadoriensis in Ecuador [PDF]

, 2017
Background: Rhodnius ecuadoriensis is the main triatomine vector of Chagas disease, American trypanosomiasis, in Southern Ecuador and Northern Peru.
Andersson, Björn, Costales, Jaime A., De Noia, Michele, Grijalva, Mario J., Hernandez Castro, Luis Enrique, Hernandez-Castro, Luis E., Llewellyn, Martin S., Ocaña-Mayorga, Sofía, Paterno, Marta, Villacís, Anita G., Yumiseva, Cesar A.   +10 more
core   +10 more sources